Is this skill suitable for commercial research?

No, the KEGG API is strictly provided for academic use only. Commercial organizations must obtain a license directly from KEGG.

Which organisms can I query with this skill?

The skill supports all organisms available in KEGG, including human (hsa), mouse (mmu), yeast (sce), and E. coli (eco), among thousands of others.

What external databases are supported for ID conversion?

You can convert identifiers between KEGG and major databases including NCBI Gene, NCBI Protein, UniProt, PubChem, and ChEBI.

Can I download pathway diagrams as images?

Yes, the skill supports retrieving pathway maps in PNG format using the 'image' format option in the kegg_get operation.

KEGG Database Analysis

Name: KEGG Database Analysis
Author: ricable

byricable

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Data Science & ML

Integrates KEGG REST API access into workflows for biological pathway analysis, gene mapping, and molecular interaction research.

The KEGG Database skill provides Claude with direct access to the Kyoto Encyclopedia of Genes and Genomes, a premier resource for understanding high-level functions of biological systems. It enables researchers to perform complex bioinformatics tasks such as gene-to-pathway mapping, metabolic pathway visualization, and drug-drug interaction analysis. By providing Python-based helpers for ID conversion across major databases like NCBI and UniProt, this skill streamlines the integration of KEGG data into broader computational biology and genomic research workflows.

Key Features

011 GitHub stars

02Support for metabolic, genomic, and disease pathway analysis

03Chemical structure and pathway image extraction

04Cross-database ID conversion for NCBI, UniProt, and PubChem

05Direct REST API access to KEGG pathways, genes, and compounds

06Sequence retrieval in FASTA format (amino acid and nucleotide)

Use Cases

01Identifying metabolic reactions and compounds associated with specific enzymes or organisms

02Mapping differentially expressed gene lists to biological pathways for enrichment analysis

03Integrating KEGG pathway data with external bioinformatics databases for unified data pipelines

What are Skills?·How to Install

Install with 🐟 Skill.Fish

npx skillfish add ricable/ultimate-ai-agent kegg-database

For use in Claude.ai and ChatGPT

Download Skill